Man page - sam(5)

Packages contains this manual

Package:  libhts3t64
apt-get install libhts3t64

Manuals in package:
• vcf(5)
• htslib-s3-plugin(7)
• sam(5)
• faidx(5)
Documentations in package:
• libhts3t64

Manual

sam

NAME
DESCRIPTION
SEE ALSO

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NAME

sam - Sequence Alignment/Map file format

DESCRIPTION

Sequence Alignment/Map (SAM) format is TAB-delimited. Apart from the header lines, which are started with the ‘@’ symbol, each alignment line consists of:

Each bit in the FLAG field is defined as:

where the second column gives the string representation of the FLAG field.

SEE ALSO

https://github.com/samtools/hts-specs

The full SAM/BAM file format specification

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